Cryo-EM structure of the PSI-LHCI-Lhcp supercomplex from Ostreococcus tauri
Domain Annotation: ECOD Classification ECOD Database Homepage
| Chains | Family Name | Domain Identifier | Architecture | Possible Homology | Homology | Topology | Family | Provenance Source (Version) |
|---|---|---|---|---|---|---|---|---|
| I [auth C] | Iso_dh | e7ycaC1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| H [auth B] | Iso_dh | e7ycaB1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| G [auth A] | Iso_dh | e7ycaA1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| F [auth 6] | TPR_1, TPR_11, TPR_12, TPR_16 | e7yca601 | A: alpha bundles | X: Rossmann-like | H: Immunoglobulin-related | T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like | F: TPR_1, TPR_11, TPR_12, TPR_16 | ECOD (develop294) |
| E [auth 5] | Iso_dh | e7yca51 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| D [auth 4] | Iso_dh | e7yca41 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| C [auth 3] | Iso_dh | e7yca31 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| W [auth Q] | Iso_dh | e7ycaQ1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| CA [auth W] | Iso_dh | e7ycaW1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| DA [auth X] | Iso_dh | e7ycaX1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| Z [auth T] | Iso_dh | e7ycaT1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| Y [auth S] | Iso_dh | e7ycaS1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| X [auth R] | Iso_dh | e7ycaR1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| V [auth P] | Iso_dh | e7ycaP1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| BA [auth V] | Iso_dh | e7ycaV1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| AA [auth U] | Iso_dh | e7ycaU1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| T [auth N] | Iso_dh | e7ycaN1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| B [auth 2] | Iso_dh | e7yca21 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| S [auth M] | Iso_dh | e7ycaM1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| R [auth L] | Iso_dh | e7ycaL1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| Q [auth K] | Iso_dh | e7ycaK1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| P [auth J] | Iso_dh | e7ycaJ1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| O [auth I] | Iso_dh | e7ycaI1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| N [auth H] | Iso_dh | e7ycaH1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| M [auth G] | Iso_dh | e7ycaG1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| L [auth F] | Iso_dh | e7ycaF1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| K [auth E] | Iso_dh | e7ycaE1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| J [auth D] | Iso_dh | e7ycaD1 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
| A [auth 1] | Iso_dh | e7yca11 | A: alpha bundles | X: RNase A-like | H: RNase A-like | T: RNase A-like | F: Iso_dh | ECOD (develop294) |
Domain Annotation: CATH CATH Database Homepage
| Chain | Domain | Class | Architecture | Topology | Homology | Provenance Source (Version) |
|---|---|---|---|---|---|---|
| W [auth Q] | 1.10.3460.10 | Mainly Alpha | Orthogonal Bundle | Chlorophyll a-b binding protein | Chlorophyll a/b binding protein domain | CATH (utative) |
Protein Family Annotation Pfam Database Homepage
| Chains | Accession | Name | Description | Comments | Source |
|---|---|---|---|---|---|
| I [auth C] | PF12838 | 4Fe-4S dicluster domain (Fer4_7) | 4Fe-4S dicluster domain | Superfamily includes proteins containing domains which bind to iron-sulfur clusters. Members include bacterial ferredoxins, various dehydrogenases, and various reductases. Structure of the domain is an alpha-antiparallel beta sandwich. Domain contai ... | Domain |
| H [auth B] | PF00223 | Photosystem I psaA/psaB protein (PsaA_PsaB) | Photosystem I psaA/psaB protein | - | Family |
| G [auth A] | PF00223 | Photosystem I psaA/psaB protein (PsaA_PsaB) | Photosystem I psaA/psaB protein | - | Family |
| E [auth 5] | PF00504 | Chlorophyll A-B binding protein (Chloroa_b-bind) | Chlorophyll A-B binding protein | - | Family |
| D [auth 4] | PF00504 | Chlorophyll A-B binding protein (Chloroa_b-bind) | Chlorophyll A-B binding protein | - | Family |
| C [auth 3] | PF00504 | Chlorophyll A-B binding protein (Chloroa_b-bind) | Chlorophyll A-B binding protein | - | Family |
| W [auth Q] | PF00504 | Chlorophyll A-B binding protein (Chloroa_b-bind) | Chlorophyll A-B binding protein | - | Family |
| U [auth O] | PF22832 | PsaO transmembrane domain (PsaO_TMD) | PsaO transmembrane domain | PsaO is one of the nine membrane-embedded subunits of photosystem I. This entry represents the transmembrane domain that was shown to consists of three transmembrane helices arranged in an L-shape [1]. | Domain |
| S [auth M] | PF07465 | Photosystem I protein M (PsaM) (PsaM) | Photosystem I protein M (PsaM) | - | Family |
| R [auth L] | PF02605 | Photosystem I reaction centre subunit XI (PsaL) | Photosystem I reaction centre subunit XI | - | Family |
| Q [auth K] | PF01241 | Photosystem I psaG / psaK (PSI_PSAK) | Photosystem I psaG / psaK | - | Family |
| P [auth J] | PF01701 | Photosystem I reaction centre subunit IX / PsaJ (PSI_PsaJ) | Photosystem I reaction centre subunit IX / PsaJ | - | Family |
| O [auth I] | PF00796 | Photosystem I reaction centre subunit VIII (PSI_8) | Photosystem I reaction centre subunit VIII | - | Family |
| M [auth G] | PF01241 | Photosystem I psaG / psaK (PSI_PSAK) | Photosystem I psaG / psaK | - | Family |
| K [auth E] | PF02427 | Photosystem I reaction centre subunit IV / PsaE (PSI_PsaE) | Photosystem I reaction centre subunit IV / PsaE | PsaE is a 69 amino acid polypeptide from photosystem I present on the stromal side of the thylakoid membrane [1]. The structure is comprised of a well-defined five-stranded beta-sheet similar to SH3 domains [1]. | Domain |
| J [auth D] | PF02531 | PsaD (PsaD) | PsaD | - | Family |
Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage
InterPro: Protein Family Classification InterPro Database Homepage
Membrane Protein Annotation: OPM OPM Database Homepage
| Chains | External Link | Type | Class | Superfamily | Family |
|---|---|---|---|---|---|
| OPM | Transmembrane | Alpha-helical polytopic | Photosystems | Photosystem I |
Membrane Protein Annotation: PDBTM PDBTM Database Homepage
| Chains | External Link | Comment |
|---|---|---|
| PDBTM | Annotated as membrane protein by PDBTM |
Protein Modification Annotation
| Modified Residue(s) | ||
|---|---|---|
| Chain | Residue(s) | Description |
| W [auth Q] | ACE | :  AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 |
| W [auth Q] | TPO | Parent Component: THR :  AA0041 , AA0042 , AA0043 , AA0044 , AA0045 , AA0046 , AA0049 , AA0050 , AA0051 , AA0052 , AA0053 , AA0054 , AA0354 , AA0038 :  N-acetyl-L-alanine MOD:00050 , N-acetyl-L-aspartic acid MOD:00051 , N-acetyl-L-cysteine MOD:00052 , N-acetyl-S-archeol-cysteine MOD:00897 , N-acetyl-L-glutamic acid MOD:00053 , N-acetyl-L-glutamine MOD:00054 , N-acetylglycine MOD:00055 , N-acetyl-L-methionine MOD:00058 , N-acetyl-L-proline MOD:00059 , N-acetyl-L-serine MOD:00060 , N,O-diacetylated L-serine MOD:00648 , N-acetyl-L-threonine MOD:00061 , N-acetyl-L-tyrosine MOD:00062 , N-acetyl-L-valine MOD:00063 , N2-acetyl-L-arginine MOD:00359 , O-phospho-L-threonine MOD:00047 |














